L1MC5_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000280 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 2694 |
| Kimura value | 25.68 |
| Tau index | 0.8765 |
| Description | 3' end of L1 retrotransposon, L1MC5_3end subfamily |
| Comment | - |
| Sequence |
TTAATATCCCTAATATATAAAGAGCTTCTAAAAATAGAGAAGAAAAAGACCAACAACCCTATAGAAAAATGGGCTAGAGATATGAACAGACAGTTCACAGAAAAAGAAATGCAAATGGCTCTTAANCATATGAAAAGATGCTCAACCTCGCTCATAATAAGAGAAATGCAAATTAAAACTACACTGAGATACCATTTCTCACCTATCAGATTGGCAAAAATCCAAAAGTTTGACAACATACTCTGTTGGCGAGGCTGTGGGGAAACAGGCACTCTCATACATTGCTGGTGGGAATGCAAAATGGTACAACCCCTATGGAGGGGAATTTGGCAATATCTAGCAAAATTACATATGCATTTACCCTTTGACCCAGCAATCCCACTTCTAGGAATCTATCCCAAAGATACACTGGCAAAAATACGAAAAGACGTATGCACAAGGCTATTCATTGCAGCACTATTTGTAATAGCAAAAGACTGGAAACAACCCAAATGTCCATCAATAGGGGACTGGTTGAATAAACTATGGTACATCCACACAATGGAGTACTATGCAGCTGTAAAAAGGAATGAGGAATATCTCTATATACTGCTATGGAGTGATCTCCAGGATATATTGTTAAGTGAAAAAAGCAAGGTGGAGAAAAGTGTGTATAGTATGCTACCGTTTATCTAAGAAAGGGGGATATAAATATATANATATACGTATTTGCTTATATTTTAAAAAAAAAACAATGGAAGGATAAACCAAAAATTAATAAAAATGGTTACCTATAGGGGGAGGGAGGGAATAGGGTGGAGGGGACAGGGATAGAAGCTAGACTTCTTTGAATATACCTTGTTTTGTAGATTTGACTTTGGAACCATGTAAATATTTTACATAATTATAAAACAAAATTAAATTTNAAAAAGCAATCCCTAAAAATCGAAAGCAAAATGAAACAAATGAACCTAACTGTGTATCNAGTTGGTGGCATAACCACACAGAGAGGAACTATTCCAAGTGACTTTAAAACACAGTAATTTGACTGTACATCCCTAGTGGGATATACCCTAAGGACAAAAAGAACTGCAAAAAAATCTTAAACTGTTTTCAGTAATCATATTGTTGGTGGTAGTGTTGGTATTGTTATTCTGAGACTGTTGTGTGTGTATTGTGGGATAAAGCAAATGAGTAATTATGTTGGTGTCGTTGAGAACCGGGATTTTCGGCGTGGGAGAAAGGAGATACAGATGTAAGATCGATGAGGTTAAGTAAAAACCCTGTAGTCCTGAATTTGAATTGGAAGTATCAGTATGAACTCATGATGTATTTTATCTTTAAAAAATACATATTTCCTAGCTCTGTCCACTGAAAAGGCCTAGAAACAATGACCAACCCAGTAGCAATGAGCACCCCTAGCGCCCAGATTGTGGTCTCTAAATACCATTTCCCACTAAAAGGAACCAGGGCTCCTTGGAGAAATGGCTGATTCCAGGTCTGGGGCAGGAAATGTACAAGATGAGCCTGGAACATCTTGTCATACCAGAAAGCAAGGAAGCTATCAAAGACTACTAGGGTCGTGTCAAAAGGACTCAGGAGCCAACTTGAAGAGGCTCCCACTGGCCAAAGATGGGACAATTTGAGCATCAATAAGGATAATAACTGCAATGGATTGAAACACATCAAATATGTTTAAATCCATGAGTTCATAATGATACTTAAAAAAAACTCATTGGTCACCTTTGGAGGATGCTAGGGAACCAACTCATTATTTTGAAAACTGGTAAATAAAGGGAAAGAATCAAGCATTTATCCTGCCTTTCCTATACGAACTGTACCTCAGGGTAACCAAATAGTTGATGAGGGGAAGTTTCTCTTTATAGAAGTATTCCAGCTAATAAATGAAGAAGGAATGATAGAATTAGAATATCACCATTTTGCAACCCCTAATGAANTAATGGATCTAGGCAATGATCATCAATGGCTGCTAACATCACAAAAAGAGAGACAACCAGACATTATGTGCCTCCTGATGGAAGNACACAACACCACCTATGAAGTAGTCTTGCCAAAAAAATCGAACCTGAATCTGATCAAGCCTCTAGATCTAACTACCAATTTACAGGAAATACAGGGGACAGAGGAACATGTTAAACGACACCACGGGGATGCAATCAGCAAAATCCAGACTGTGGGAAACTCTACAGGACAAACGACCCGGTTTCTTCAACAAATAAATTGCAAGAAAAAAAAGATGGAGGGGGAACCTATAGATTAAAAGAGACTTAAGAGACATATCAACCAATCGCAATGTATGGACCTTATTTGGATCCTGATTCAAACAAACAAACTATAAAAAAACATTTATGAGACAATCGGGGAAATTTGAACACTGACTGGATATTTGATGATATTAAGGAATTATTGTTAATTTTTTAGGTGTGATAATGGTATTGTGGTTATGTTTTTNAAAAGAGTCCTTATCTTTTAGAGATACATACTGAAATATTTACGGATGAAATGATATGATGTCTGGGATTTGCTTCAAAATAATCCGGGAGGGAGGAAGTGGGTGGGGGTATAGATGAAACAAGATTGGCCATGAGTTGATAATTGTTGAAGCTGGGTGATGGGTACATGGGGGTTCATTATACTATTCTCTCTACTTTTGTATATGTTTGAAATTTTCCATAATAAAAAGTTAAAAAAAAA
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TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| L1MC5_3end | ZNF8 | 520 | 539 | - | 26.91 | GTGTGGATGTACCATAGTTT |
| L1MC5_3end | DOF3.4 | 2678 | 2694 | - | 19.50 | TTTTTTTTTAACTTTTT |
| L1MC5_3end | PRDM9 | 774 | 793 | + | 19.02 | TAGGGGGAGGGAGGGAATAG |
| L1MC5_3end | MEF2D | 27 | 38 | + | 18.69 | TCTAAAAATAGA |
| L1MC5_3end | RLM1 | 26 | 39 | + | 17.72 | TTCTAAAAATAGAG |
| L1MC5_3end | ZNF140 | 368 | 386 | - | 17.46 | AGAAGTGGGATTGCTGGGT |
| L1MC5_3end | THRB | 359 | 371 | - | 17.38 | GGGTCAAAGGGTA |
| L1MC5_3end | Su(H) | 2173 | 2182 | + | 17.20 | TGTGGGAAAC |
| L1MC5_3end | cg | 1144 | 1154 | - | 16.98 | ATACACACACA |
| L1MC5_3end | MEF2C | 28 | 38 | + | 16.90 | CTAAAAATAGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
